Matteo Pellegrini

According to our database, Matteo Pellegrini authored at least 31 papers between 2003 and 2024.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of two.

2024

BayesAge: A maximum likelihood algorithm to predict epigenetic age.

Lajoyce Mboning, Liudmilla Rubbi, Michael Thompson, Louis-S. Bouchard, Matteo Pellegrini

Frontiers Bioinform., 2024

Editorial: Computational methods for analysis of DNA methylation data, volume II.

Pietro Di Lena, Christine Nardini, Matteo Pellegrini

Frontiers Bioinform., 2024

Representing Compounding with OntoLex. An Evaluation of Vocabularies for Word Formation Resources.

Elena Benzoni, Matteo Pellegrini, Francesco Dedè, Marco Passarotti

Proceedings of the 2024 Joint International Conference on Computational Linguistics, 2024

2023

Identifying epigenetic aging moderators using the epigenetic pacemaker.

Colin Farrell, Chanyue Hu, Kalsuda Lapborisuth, Kyle Pu, Sagi Snir, Matteo Pellegrini

Frontiers Bioinform., May, 2023

Embed-Search-Align: DNA Sequence Alignment using Transformer Models.

Pavan Holur, Kenneth C. Enevoldsen, Lajoyce Mboning, Thalia Georgiou, Louis-S. Bouchard, Matteo Pellegrini, Vwani Roychowdhury

CoRR, 2023

Beyond Obscuration and Visibility: Thoughts on the Different Strategies of Gender-Fair Language in Italian.

Martina Rosola, Simona Frenda, Alessandra Teresa Cignarella, Matteo Pellegrini, Andrea Marra, Mara Floris

Proceedings of the 9th Italian Conference on Computational Linguistics, Venice, Italy, November 30, 2023

2022

Enhancing Derivational Information on Latin Lemmas in the LiLa Knowledge Base. A Structural and Diachronic Extension.

Matteo Pellegrini, Marco Passarotti, Eleonora Litta, Francesco Mambrini, Giovanni Moretti, Claudia Corbetta, Martina Verdelli

Prague Bull. Math. Linguistics, 2022

The IntAct database: efficient access to fine-grained molecular interaction data.

Noemi del-Toro, Anjali Shrivastava, Eliot Ragueneau, Birgit Meldal, Colin W. Combe, Elisabet Barrera, Livia Perfetto, Karyn How, Prashansa Ratan, Gautam Shirodkar, Odilia Lu, Bálint Mészáros, Xavier Watkins, Sangya Pundir, Luana Licata, Marta Iannuccelli, Matteo Pellegrini, Maria Jesus Martin, Simona Panni, Margaret J. Duesbury, Sylvain D. Vallet, Juri Rappsilber, Sylvie Ricard-Blum, Gianni Cesareni, Lukasz Salwínski, Sandra E. Orchard, Pablo Porras, Kalpana Panneerselvam, Henning Hermjakob

Nucleic Acids Res., 2022

Editorial: Computational Methods for Analysis of DNA Methylation Data.

Pietro Di Lena, Christine Nardini, Matteo Pellegrini

Frontiers Bioinform., 2022

The Index Thomisticus Treebank as Linked Data in the LiLa Knowledge Base.

Francesco Mambrini, Marco Passarotti, Giovanni Moretti, Matteo Pellegrini

Proceedings of the Thirteenth Language Resources and Evaluation Conference, 2022

Computational Morphology with OntoLex-Morph.

Christian Chiarcos, Katerina Gkirtzou, Anas Fahad Khan, Penny Labropoulou, Marco Passarotti, Matteo Pellegrini

Proceedings of the 8th Workshop on Linked Data in Linguistics within the 13th Language Resources and Evaluation Conference, 2022

2021

Systematic evaluation of transcriptomics-based deconvolution methods and references using thousands of clinical samples.

Brian B. Nadel, Meritxell Oliva, Benjamin L. Shou, Keith Mitchell, Feiyang Ma, Dennis J. Montoya, Alice Mouton, Sarah Kim-Hellmuth, Barbara E. Stranger, Matteo Pellegrini, Serghei Mangul

Briefings Bioinform., 2021

2020

ACTINN: automated identification of cell types in single cell RNA sequencing.

Feiyang Ma, Matteo Pellegrini

Bioinform., 2020

The Epigenetic Pacemaker: modeling epigenetic states under an evolutionary framework.

Colin Farrell, Sagi Snir, Matteo Pellegrini

Bioinform., 2020

The IMEx coronavirus interactome: an evolving map of Coronaviridae-host molecular interactions.

Livia Perfetto, Chiara Pastrello, Noemi del-Toro, Margaret J. Duesbury, Marta Iannuccelli, Max Kotlyar, Luana Licata, Birgit Meldal, Kalpana Panneerselvam, Simona Panni, N. Rahimzadeh, Sylvie Ricard-Blum, Lukasz Salwínski, Anjali Shrivastava, Gianni Cesareni, Matteo Pellegrini, Sandra E. Orchard, Igor Jurisica, Henning Hermjakob, Pablo Porras

Database J. Biol. Databases Curation, 2020

(Stem and Word) Predictability in Italian Verb Paradigms: An Entropy-Based Study Exploiting the New Resource LeFFI.

Matteo Pellegrini, Alessandra Teresa Cignarella

Proceedings of the Seventh Italian Conference on Computational Linguistics, 2020

2019

Identification of Bridging Centrality in Complex Networks.

Wei Liu, Matteo Pellegrini, Aiping Wu

IEEE Access, 2019

2018

CGmapTools improves the precision of heterozygous SNV calls and supports allele-specific methylation detection and visualization in bisulfite-sequencing data.

Weilong Guo, Ping Zhu, Matteo Pellegrini, Michael Q. Zhang, Xiangfeng Wang, Zhongfu Ni

Bioinform., 2018

LatInfLexi: an Inflected Lexicon of Latin Verbs.

Matteo Pellegrini, Marco Passarotti

Proceedings of the Fifth Italian Conference on Computational Linguistics (CLiC-it 2018), 2018

2016

A Statistical Framework to Identify Deviation from Time Linearity in Epigenetic Aging.

Sagi Snir, Bridgett M. Vonholdt, Matteo Pellegrini

PLoS Comput. Biol., 2016

2014

Gene expression and nucleotide composition are associated with genic methylation level in Oryza sativa.

Eran Elhaik, Matteo Pellegrini, Tatiana V. Tatarinova

BMC Bioinform., 2014

FamAnn: an automated variant annotation pipeline to facilitate target discovery for family-based sequencing studies.

Jianchao Yao, Kelvin Xi Zhang, Melissa Kramer, Matteo Pellegrini, W. Richard McCombie

Bioinform., 2014

2011

Regulation of the yeast metabolic cycle by transcription factors with periodic activities.

Aliz R. Rao, Matteo Pellegrini

BMC Syst. Biol., 2011

Algal Functional Annotation Tool: a web-based analysis suite to functionally interpret large gene lists using integrated annotation and expression data.

David López, David Casero, Shawn Cokus, Sabeeha S. Merchant, Matteo Pellegrini

BMC Bioinform., 2011

2010

BS Seeker: precise mapping for bisulfite sequencing.

Pao-Yang Chen, Shawn Cokus, Matteo Pellegrini

BMC Bioinform., 2010

2009

A Primer on Regression Methods for Decoding <i>cis</i>-Regulatory Logic.

Debopriya Das, Matteo Pellegrini, Joe W. Gray

PLoS Comput. Biol., 2009

Detecting coordinated regulation of multi-protein complexes using logic analysis of gene expression.

Einat Sprinzak, Shawn Cokus, Todd O. Yeates, David S. Eisenberg, Matteo Pellegrini

BMC Syst. Biol., 2009

2008

Identifying Cognate Binding Pairs among a Large Set of Paralogs: The Case of PE/PPE Proteins of <i>Mycobacterium tuberculosis</i>.

Robert Riley, Matteo Pellegrini, David S. Eisenberg

PLoS Comput. Biol., 2008

2007

An improved method for identifying functionally linked proteins using phylogenetic profiles.

Shawn Cokus, Sayaka Mizutani, Matteo Pellegrini

BMC Bioinform., 2007

2006

Modelling the network of cell cycle transcription factors in the yeast <i>Saccharomyces cerevisiae</i>.

Shawn Cokus, Sherri Rose, David R. Haynor, Niels Grønbech-Jensen, Matteo Pellegrini

BMC Bioinform., 2006

2003

Inferring protein interactions from phylogenetic distance matrices.

Jason Gertz, Georgiy Elfond, Anna Shustrova, Matt Weisinger, Matteo Pellegrini, Shawn Cokus, Bruce Rothschild

Bioinform., 2003